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Tandem mass spectrometry is a technique that uses multiple mass analyzers in series to obtain a higher selectivity and reduce chemical noise during analyte detection. Instruments with multiple analyzers separated by an interaction cell enable secondary fragmentation and selected study of the fragment ions.Secondary fragmentations occur in the interaction cell and can be induced by various factors. Fragmentation induced by collision with inert gases, such as N2, Ar, He, etc., is called...
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Tandem mass spectrometry, also known as MS/MS or MS2, is an analytical technique that employs two mass analyzers. Essentially it is a series of mass spectrometers that helps isolate a particular biomolecule and then helps study its chemical properties.
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Improving Proteomic Dynamic Range with Multiple Accumulation Precursor Mass Spectrometry.

Teeradon Phlairaharn1,2, Ariana E Shannon1, Xinlei Zeng3

  • 1Department of Quantitative Health Sciences, Mayo Clinic, Rochester, Minnesota 55905, United States.

Journal of Proteome Research
|September 12, 2025
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Summary
This summary is machine-generated.

Scientists developed multiple accumulation precursor mass spectrometry (MAP-MS) to boost Orbitrap mass spectrometer performance. This method nearly doubles dynamic range without hardware changes, enhancing peptide detection in data-independent acquisition.

Keywords:
data-dependent acquisitiondata-independent acquisitionmass spectrometrymultiplexingorbitrap mass analyzerpeptide identification optimizationpeptide quantification optimization

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Area of Science:

  • Analytical Chemistry
  • Mass Spectrometry
  • Proteomics

Background:

  • Orbitrap (OT)-based mass spectrometers are crucial for high-resolution analysis but suffer from slower scanning speeds compared to other mass analyzers.
  • Extending the dynamic range of precursor ion detection is essential for comprehensive analysis in mass spectrometry.
  • Current methods often require complex software or hardware modifications to improve performance.

Purpose of the Study:

  • To enhance the precursor dynamic range of Orbitrap mass spectrometers without requiring hardware or software modifications.
  • To introduce and evaluate a novel method called multiple accumulation precursor mass spectrometry (MAP-MS).
  • To assess the impact of MAP-MS on both data-dependent acquisition (DDA) and data-independent acquisition (DIA) methods.

Main Methods:

  • Utilized long Orbitrap (OT) transients to extend precursor dynamic range.
  • Modified the selected ion monitoring method to multiplex several precursor m/z ranges into a single scan, termed multiple accumulation precursor mass spectrometry (MAP-MS).
  • Collected data using both data-dependent acquisition (DDA) and data-independent acquisition (DIA) strategies for evaluation.

Main Results:

  • MAP-MS achieved nearly 2x increase in precursor dynamic range with no significant consequences or additional ion accumulation time.
  • Precursor quantification improved with higher quality measurements when using MAP-MS in DDA mode.
  • Peptide detection in DIA mode was enhanced by up to 11% when combining precursor and tandem mass spectra with MAP-MS.

Conclusions:

  • Multiple accumulation precursor mass spectrometry (MAP-MS) is an effective, modification-free strategy to significantly enhance precursor dynamic range in Orbitrap mass spectrometry.
  • MAP-MS improves quantitative accuracy in DDA and boosts peptide detection sensitivity in DIA, offering broad applicability.
  • This approach represents a valuable advancement for high-resolution mass spectrometry, particularly in complex biological sample analysis.